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==Data from publications== | ==Data from publications== | ||
- | The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of | + | The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of Nov. 5, 2017. |
#Lipton MS, Pasa-Tolic' L, Anderson GA, Anderson DJ, Auberry DL, Battista JR, Daly MJ, Fredrickson J, Hixson KK, Kostandarithes H, Masselon C, Markillie LM, Moore RJ, Romine MF, Shen Y, Stritmatter E, Tolic' N, Udseth HR, Venkateswaran A, Wong KK, Zhao R, Smith RD, (2002) "Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags." <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/12177431 12177431]; doi: [https://dx.doi.org/10.1073/pnas.172170199 10.1073/pnas.172170199]; GPMDB: [http://gpmdb.org/data/keyword/12177431 498]. | #Lipton MS, Pasa-Tolic' L, Anderson GA, Anderson DJ, Auberry DL, Battista JR, Daly MJ, Fredrickson J, Hixson KK, Kostandarithes H, Masselon C, Markillie LM, Moore RJ, Romine MF, Shen Y, Stritmatter E, Tolic' N, Udseth HR, Venkateswaran A, Wong KK, Zhao R, Smith RD, (2002) "Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags." <i>Proc Natl Acad Sci U S A</i> <b>99</b>(17):11049–54; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/12177431 12177431]; doi: [https://dx.doi.org/10.1073/pnas.172170199 10.1073/pnas.172170199]; GPMDB: [http://gpmdb.org/data/keyword/12177431 498]. | ||
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#Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T, (2015) "Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA." <i>J Immunol</i> <b>195</b>(9):4244–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26408665 26408665]; doi: [https://dx.doi.org/10.4049/jimmunol.1500676 10.4049/jimmunol.1500676]; GPMDB: [http://gpmdb.org/data/keyword/26408665 60]. | #Li S, Dislich B, Brakebusch CH, Lichtenthaler SF, Brocker T, (2015) "Control of Homeostasis and Dendritic Cell Survival by the GTPase RhoA." <i>J Immunol</i> <b>195</b>(9):4244–56; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26408665 26408665]; doi: [https://dx.doi.org/10.4049/jimmunol.1500676 10.4049/jimmunol.1500676]; GPMDB: [http://gpmdb.org/data/keyword/26408665 60]. | ||
#Beckley JR, Chen JS, Yang Y, Peng J, Gould KL, (2015) "A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival." <i>Mol Cell Proteomics</i> <b>14</b>(12):3132–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412298 26412298]; doi: [https://dx.doi.org/10.1074/mcp.M115.050039 10.1074/mcp.M115.050039]; GPMDB: [http://gpmdb.org/data/keyword/26412298 246]. | #Beckley JR, Chen JS, Yang Y, Peng J, Gould KL, (2015) "A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival." <i>Mol Cell Proteomics</i> <b>14</b>(12):3132–41; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412298 26412298]; doi: [https://dx.doi.org/10.1074/mcp.M115.050039 10.1074/mcp.M115.050039]; GPMDB: [http://gpmdb.org/data/keyword/26412298 246]. | ||
- | #Glatter T, Ahrné E, Schmidt A, (2015) "Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells." <i>J Proteome Res</i> <b>14</b>(11):4472–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412744 26412744]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00654 10.1021/acs.jproteome.5b00654]; GPMDB: [http://gpmdb.org/data/keyword/26412744 | + | #Glatter T, Ahrné E, Schmidt A, (2015) "Comparison of Different Sample Preparation Protocols Reveals Lysis Buffer-Specific Extraction Biases in Gram-Negative Bacteria and Human Cells." <i>J Proteome Res</i> <b>14</b>(11):4472–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26412744 26412744]; doi: [https://dx.doi.org/10.1021/acs.jproteome.5b00654 10.1021/acs.jproteome.5b00654]; GPMDB: [http://gpmdb.org/data/keyword/26412744 901]. |
#Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A, (2015) "Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26418743 26418743]; doi: [https://dx.doi.org/10.7554/eLife.09579 10.7554/eLife.09579]; GPMDB: [http://gpmdb.org/data/keyword/26418743 12]. | #Hadley KC, Rakhit R, Guo H, Sun Y, Jonkman JE, McLaurin J, Hazrati LN, Emili A, Chakrabartty A, (2015) "Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26418743 26418743]; doi: [https://dx.doi.org/10.7554/eLife.09579 10.7554/eLife.09579]; GPMDB: [http://gpmdb.org/data/keyword/26418743 12]. | ||
#Gallart-Palau X, Serra A, Wong AS, Sandin S, Lai MK, Chen CP, Kon OL, Sze SK, (2015) "Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR)." <i>Sci Rep</i> <b>5</b>:14664; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26419333 26419333]; doi: [https://dx.doi.org/10.1038/srep14664 10.1038/srep14664]; GPMDB: [http://gpmdb.org/data/keyword/26419333 172]. | #Gallart-Palau X, Serra A, Wong AS, Sandin S, Lai MK, Chen CP, Kon OL, Sze SK, (2015) "Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR)." <i>Sci Rep</i> <b>5</b>:14664; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/26419333 26419333]; doi: [https://dx.doi.org/10.1038/srep14664 10.1038/srep14664]; GPMDB: [http://gpmdb.org/data/keyword/26419333 172]. | ||
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#Naboulsi W, Bracht T, Megger DA, Reis H, Ahrens M, Turewicz M, Eisenacher M, Tautges S, Canbay AE, Meyer HE, Weber F, Baba HA, Sitek B, (2016) "Quantitative proteome analysis reveals the correlation between endocytosis-associated proteins and hepatocellular carcinoma dedifferentiation." <i>Biochim Biophys Acta</i> <b>1864</b>(11):1579–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27519163 27519163]; doi: [https://dx.doi.org/10.1016/j.bbapap.2016.08.005 10.1016/j.bbapap.2016.08.005]; GPMDB: [http://gpmdb.org/data/keyword/27519163 36]. | #Naboulsi W, Bracht T, Megger DA, Reis H, Ahrens M, Turewicz M, Eisenacher M, Tautges S, Canbay AE, Meyer HE, Weber F, Baba HA, Sitek B, (2016) "Quantitative proteome analysis reveals the correlation between endocytosis-associated proteins and hepatocellular carcinoma dedifferentiation." <i>Biochim Biophys Acta</i> <b>1864</b>(11):1579–85; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27519163 27519163]; doi: [https://dx.doi.org/10.1016/j.bbapap.2016.08.005 10.1016/j.bbapap.2016.08.005]; GPMDB: [http://gpmdb.org/data/keyword/27519163 36]. | ||
#Rasmussen MH, Lyskjær I, Jersie-Christensen RR, Tarpgaard LS, Primdal-Bengtson B, Nielsen MM, Pedersen JS, Hansen TP, Hansen F, Olsen JV, Pfeiffer P, Ørntoft TF, Andersen CL, (2016) "miR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signalling in human colorectal adenocarcinoma cells." <i>Nat Commun</i> <b>7</b>:12436; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27526785 27526785]; doi: [https://dx.doi.org/10.1038/ncomms12436 10.1038/ncomms12436]; GPMDB: [http://gpmdb.org/data/keyword/27526785 24]. | #Rasmussen MH, Lyskjær I, Jersie-Christensen RR, Tarpgaard LS, Primdal-Bengtson B, Nielsen MM, Pedersen JS, Hansen TP, Hansen F, Olsen JV, Pfeiffer P, Ørntoft TF, Andersen CL, (2016) "miR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signalling in human colorectal adenocarcinoma cells." <i>Nat Commun</i> <b>7</b>:12436; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27526785 27526785]; doi: [https://dx.doi.org/10.1038/ncomms12436 10.1038/ncomms12436]; GPMDB: [http://gpmdb.org/data/keyword/27526785 24]. | ||
+ | #Chatterjee S, Stupp GS, Park SK, Ducom JC, Yates JR 3rd, Su AI, Wolan DW, (2016) "A comprehensive and scalable database search system for metaproteomics." <i>BMC Genomics</i> <b>17</b>(1):642; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27528457 27528457]; doi: [https://dx.doi.org/10.1186/s12864-016-2855-3 10.1186/s12864-016-2855-3]; GPMDB: [http://gpmdb.org/data/keyword/27528457 28]. | ||
#Liu L, Phua YW, Lee RS, Ma X, Jenkins Y, Novy K, Humphrey ES, Chan H, Shearer R, Ong PC, Dai W, Saunders DN, Lucet IS, Daly RJ, (2016) "Homo- and Heterotypic Association Regulates Signaling by the SgK269/PEAK1 and SgK223 Pseudokinases." <i>J Biol Chem</i> <b>291</b>(41):21571–21583; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27531744 27531744]; doi: [https://dx.doi.org/10.1074/jbc.M116.748897 10.1074/jbc.M116.748897]; GPMDB: [http://gpmdb.org/data/keyword/27531744 6]. | #Liu L, Phua YW, Lee RS, Ma X, Jenkins Y, Novy K, Humphrey ES, Chan H, Shearer R, Ong PC, Dai W, Saunders DN, Lucet IS, Daly RJ, (2016) "Homo- and Heterotypic Association Regulates Signaling by the SgK269/PEAK1 and SgK223 Pseudokinases." <i>J Biol Chem</i> <b>291</b>(41):21571–21583; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27531744 27531744]; doi: [https://dx.doi.org/10.1074/jbc.M116.748897 10.1074/jbc.M116.748897]; GPMDB: [http://gpmdb.org/data/keyword/27531744 6]. | ||
#Mattei B, Spinelli F, Pontiggia D, De Lorenzo G, (2016) "Comprehensive Analysis of the Membrane Phosphoproteome Regulated by Oligogalacturonides in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1107; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27532006 27532006]; doi: [https://dx.doi.org/10.3389/fpls.2016.01107 10.3389/fpls.2016.01107]; GPMDB: [http://gpmdb.org/data/keyword/27532006 12]. | #Mattei B, Spinelli F, Pontiggia D, De Lorenzo G, (2016) "Comprehensive Analysis of the Membrane Phosphoproteome Regulated by Oligogalacturonides in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1107; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27532006 27532006]; doi: [https://dx.doi.org/10.3389/fpls.2016.01107 10.3389/fpls.2016.01107]; GPMDB: [http://gpmdb.org/data/keyword/27532006 12]. | ||
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#Mauri M, Kirchner M, Aharoni R, Ciolli Mattioli C, van den Bruck D, Gutkovitch N, Modepalli V, Selbach M, Moran Y, Chekulaeva M, (2016) "Conservation of miRNA-mediated silencing mechanisms across 600 million years of animal evolution." <i>Nucleic Acids Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27604873 27604873]; doi: [https://dx.doi.org/10.1093/nar/gkw792 10.1093/nar/gkw792]; GPMDB: [http://gpmdb.org/data/keyword/27604873 35]. | #Mauri M, Kirchner M, Aharoni R, Ciolli Mattioli C, van den Bruck D, Gutkovitch N, Modepalli V, Selbach M, Moran Y, Chekulaeva M, (2016) "Conservation of miRNA-mediated silencing mechanisms across 600 million years of animal evolution." <i>Nucleic Acids Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27604873 27604873]; doi: [https://dx.doi.org/10.1093/nar/gkw792 10.1093/nar/gkw792]; GPMDB: [http://gpmdb.org/data/keyword/27604873 35]. | ||
#Lee J, McKinney KQ, Pavlopoulos AJ, Han MH, Kim SH, Kim HJ, Hwang S, (2016) "Exosomal proteome analysis of cerebrospinal fluid detects biosignatures of neuromyelitis optica and multiple sclerosis." <i>Clin Chim Acta</i> <b>462</b>:118–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27609124 27609124]; doi: [https://dx.doi.org/10.1016/j.cca.2016.09.001 10.1016/j.cca.2016.09.001]; GPMDB: [http://gpmdb.org/data/keyword/27609124 24]. | #Lee J, McKinney KQ, Pavlopoulos AJ, Han MH, Kim SH, Kim HJ, Hwang S, (2016) "Exosomal proteome analysis of cerebrospinal fluid detects biosignatures of neuromyelitis optica and multiple sclerosis." <i>Clin Chim Acta</i> <b>462</b>:118–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27609124 27609124]; doi: [https://dx.doi.org/10.1016/j.cca.2016.09.001 10.1016/j.cca.2016.09.001]; GPMDB: [http://gpmdb.org/data/keyword/27609124 24]. | ||
+ | #Mulvaney KM, Matson JP, Siesser PF, Tamir TY, Goldfarb D, Jacobs TM, Cloer EW, Harrison JS, Vaziri C, Cook JG, Major MB, (2016) "Identification and Characterization of MCM3 as a Kelch-like ECH-associated Protein 1 (KEAP1) Substrate." <i>J Biol Chem</i> <b>291</b>(45):23719–23733; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27621311 27621311]; doi: [https://dx.doi.org/10.1074/jbc.M116.729418 10.1074/jbc.M116.729418]; GPMDB: [http://gpmdb.org/data/keyword/27621311 22]. | ||
#Subramanian S, Souleimanov A, Smith DL, (2016) "Proteomic Studies on the Effects of Lipo-Chitooligosaccharide and Thuricin 17 under Unstressed and Salt Stressed Conditions in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27625672 27625672]; doi: [https://dx.doi.org/10.3389/fpls.2016.01314 10.3389/fpls.2016.01314]; GPMDB: [http://gpmdb.org/data/keyword/27625672 36]. | #Subramanian S, Souleimanov A, Smith DL, (2016) "Proteomic Studies on the Effects of Lipo-Chitooligosaccharide and Thuricin 17 under Unstressed and Salt Stressed Conditions in Arabidopsis thaliana." <i>Front Plant Sci</i> <b>7</b>:1314; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27625672 27625672]; doi: [https://dx.doi.org/10.3389/fpls.2016.01314 10.3389/fpls.2016.01314]; GPMDB: [http://gpmdb.org/data/keyword/27625672 36]. | ||
#Stroud DA, Surgenor EE, Formosa LE, Reljic B, Frazier AE, Dibley MG, Osellame LD, Stait T, Beilharz TH, Thorburn DR, Salim A, Ryan MT, (2016) "Accessory subunits are integral for assembly and function of human mitochondrial complex I." <i>Nature</i> <b>538</b>(7623):123–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27626371 27626371]; doi: [https://dx.doi.org/10.1038/nature19754 10.1038/nature19754]; GPMDB: [http://gpmdb.org/data/keyword/27626371 10]. | #Stroud DA, Surgenor EE, Formosa LE, Reljic B, Frazier AE, Dibley MG, Osellame LD, Stait T, Beilharz TH, Thorburn DR, Salim A, Ryan MT, (2016) "Accessory subunits are integral for assembly and function of human mitochondrial complex I." <i>Nature</i> <b>538</b>(7623):123–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27626371 27626371]; doi: [https://dx.doi.org/10.1038/nature19754 10.1038/nature19754]; GPMDB: [http://gpmdb.org/data/keyword/27626371 10]. | ||
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#Schanzenbächer CT, Sambandan S, Langer JD, Schuman EM, (2016) "Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses." <i>Neuron</i> <b>92</b>(2):358–371; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27764671 27764671]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.09.058 10.1016/j.neuron.2016.09.058]; GPMDB: [http://gpmdb.org/data/keyword/27764671 80]. | #Schanzenbächer CT, Sambandan S, Langer JD, Schuman EM, (2016) "Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses." <i>Neuron</i> <b>92</b>(2):358–371; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27764671 27764671]; doi: [https://dx.doi.org/10.1016/j.neuron.2016.09.058 10.1016/j.neuron.2016.09.058]; GPMDB: [http://gpmdb.org/data/keyword/27764671 80]. | ||
#Yu P, Hahne H, Wilhelm M, Kuster B, (2017) "Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics." <i>Anal Bioanal Chem</i> <b>409</b>(4):1049–1057; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27766361 27766361]; doi: [https://dx.doi.org/10.1007/s00216-016-0023-x 10.1007/s00216-016-0023-x]; GPMDB: [http://gpmdb.org/data/keyword/27766361 147]. | #Yu P, Hahne H, Wilhelm M, Kuster B, (2017) "Ethylene glycol improves electrospray ionization efficiency in bottom-up proteomics." <i>Anal Bioanal Chem</i> <b>409</b>(4):1049–1057; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27766361 27766361]; doi: [https://dx.doi.org/10.1007/s00216-016-0023-x 10.1007/s00216-016-0023-x]; GPMDB: [http://gpmdb.org/data/keyword/27766361 147]. | ||
+ | #Isogai T, van der Kammen R, Bleijerveld OB, Goerdayal SS, Argenzio E, Altelaar AF, Innocenti M, (2016) "Quantitative Proteomics Illuminates a Functional Interaction between mDia2 and the Proteasome." <i>J Proteome Res</i> <b>15</b>(12):4624–4637; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27769112 27769112]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00718 10.1021/acs.jproteome.6b00718]; GPMDB: [http://gpmdb.org/data/keyword/27769112 44]. | ||
#Peng J, Cao J, Ng FM, Hill J, (2016) "Pseudomonas aeruginosa develops Ciprofloxacin resistance from low to high level with distinctive proteome changes." <i>J Proteomics</i> <b>152</b>:75–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27771372 27771372]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.005 10.1016/j.jprot.2016.10.005]; GPMDB: [http://gpmdb.org/data/keyword/27771372 25]. | #Peng J, Cao J, Ng FM, Hill J, (2016) "Pseudomonas aeruginosa develops Ciprofloxacin resistance from low to high level with distinctive proteome changes." <i>J Proteomics</i> <b>152</b>:75–87; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27771372 27771372]; doi: [https://dx.doi.org/10.1016/j.jprot.2016.10.005 10.1016/j.jprot.2016.10.005]; GPMDB: [http://gpmdb.org/data/keyword/27771372 25]. | ||
#Rafiee MR, Girardot C, Sigismondo G, Krijgsveld J, (2016) "Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins." <i>Mol Cell</i> <b>64</b>(3):624–635; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27773674 27773674]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.09.019 10.1016/j.molcel.2016.09.019]; GPMDB: [http://gpmdb.org/data/keyword/27773674 13]. | #Rafiee MR, Girardot C, Sigismondo G, Krijgsveld J, (2016) "Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins." <i>Mol Cell</i> <b>64</b>(3):624–635; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27773674 27773674]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.09.019 10.1016/j.molcel.2016.09.019]; GPMDB: [http://gpmdb.org/data/keyword/27773674 13]. | ||
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#Sheppard C, Blombach F, Belsom A, Schulz S, Daviter T, Smollett K, Mahieu E, Erdmann S, Tinnefeld P, Garrett R, Grohmann D, Rappsilber J, Werner F, (2016) "Repression of RNA polymerase by the archaeo-viral regulator ORF145/RIP." <i>Nat Commun</i> <b>7</b>:13595; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27882920 27882920]; doi: [https://dx.doi.org/10.1038/ncomms13595 10.1038/ncomms13595]; GPMDB: [http://gpmdb.org/data/keyword/27882920 9]. | #Sheppard C, Blombach F, Belsom A, Schulz S, Daviter T, Smollett K, Mahieu E, Erdmann S, Tinnefeld P, Garrett R, Grohmann D, Rappsilber J, Werner F, (2016) "Repression of RNA polymerase by the archaeo-viral regulator ORF145/RIP." <i>Nat Commun</i> <b>7</b>:13595; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27882920 27882920]; doi: [https://dx.doi.org/10.1038/ncomms13595 10.1038/ncomms13595]; GPMDB: [http://gpmdb.org/data/keyword/27882920 9]. | ||
#Hurwitz SN, Rider MA, Bundy JL, Liu X, Singh RK, Meckes DG Jr, (2016) "Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers." <i>Oncotarget</i> <b>7</b>(52):86999–87015; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27894104 27894104]; doi: [https://dx.doi.org/10.18632/oncotarget.13569 10.18632/oncotarget.13569]; GPMDB: [http://gpmdb.org/data/keyword/27894104 898]. | #Hurwitz SN, Rider MA, Bundy JL, Liu X, Singh RK, Meckes DG Jr, (2016) "Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers." <i>Oncotarget</i> <b>7</b>(52):86999–87015; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27894104 27894104]; doi: [https://dx.doi.org/10.18632/oncotarget.13569 10.18632/oncotarget.13569]; GPMDB: [http://gpmdb.org/data/keyword/27894104 898]. | ||
+ | #Gonneaud A, Jones C, Turgeon N, Lévesque D, Asselin C, Boudreau F, Boisvert FM, (2016) "A SILAC-Based Method for Quantitative Proteomic Analysis of Intestinal Organoids." <i>Sci Rep</i> <b>6</b>:38195; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27901089 27901089]; doi: [https://dx.doi.org/10.1038/srep38195 10.1038/srep38195]; GPMDB: [http://gpmdb.org/data/keyword/27901089 38]. | ||
#Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M, (2016) "Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry." <i>PLoS One</i> <b>11</b>(12):e0167138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27907059 27907059]; doi: [https://dx.doi.org/10.1371/journal.pone.0167138 10.1371/journal.pone.0167138]; GPMDB: [http://gpmdb.org/data/keyword/27907059 3]. | #Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M, (2016) "Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry." <i>PLoS One</i> <b>11</b>(12):e0167138; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27907059 27907059]; doi: [https://dx.doi.org/10.1371/journal.pone.0167138 10.1371/journal.pone.0167138]; GPMDB: [http://gpmdb.org/data/keyword/27907059 3]. | ||
#Tatham MH, Cole C, Scullion P, Wilkie R, Westwood NJ, Stark LA, Hay RT, (2016) "A proteomic approach to analyse the aspirin-mediated lysine acetylome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27913581 27913581]; doi: [https://dx.doi.org/10.1074/mcp.O116.065219 10.1074/mcp.O116.065219]; GPMDB: [http://gpmdb.org/data/keyword/27913581 40]. | #Tatham MH, Cole C, Scullion P, Wilkie R, Westwood NJ, Stark LA, Hay RT, (2016) "A proteomic approach to analyse the aspirin-mediated lysine acetylome." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/27913581 27913581]; doi: [https://dx.doi.org/10.1074/mcp.O116.065219 10.1074/mcp.O116.065219]; GPMDB: [http://gpmdb.org/data/keyword/27913581 40]. | ||
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#Godfrey M, Touati SA, Kataria M, Jones A, Snijders AP, Uhlmann F, (2017) "PP2A<sup>Cdc55</sup> Phosphatase Imposes Ordered Cell-Cycle Phosphorylation by Opposing Threonine Phosphorylation." <i>Mol Cell</i> <b>65</b>(3):393–402.e3; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28132839 28132839]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.12.018 10.1016/j.molcel.2016.12.018]; GPMDB: [http://gpmdb.org/data/keyword/28132839 120]. | #Godfrey M, Touati SA, Kataria M, Jones A, Snijders AP, Uhlmann F, (2017) "PP2A<sup>Cdc55</sup> Phosphatase Imposes Ordered Cell-Cycle Phosphorylation by Opposing Threonine Phosphorylation." <i>Mol Cell</i> <b>65</b>(3):393–402.e3; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28132839 28132839]; doi: [https://dx.doi.org/10.1016/j.molcel.2016.12.018 10.1016/j.molcel.2016.12.018]; GPMDB: [http://gpmdb.org/data/keyword/28132839 120]. | ||
#Zolg DP, Wilhelm M, Schnatbaum K, Zerweck J, Knaute T, Delanghe B, Bailey DJ, Gessulat S, Ehrlich HC, Weininger M, Yu P, Schlegl J, Kramer K, Schmidt T, Kusebauch U, Deutsch EW, Aebersold R, Moritz RL, Wenschuh H, Moehring T, Aiche S, Huhmer A, Reimer U, Kuster B, (2017) "Building ProteomeTools based on a complete synthetic human proteome." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28135259 28135259]; doi: [https://dx.doi.org/10.1038/nmeth.4153 10.1038/nmeth.4153]; GPMDB: [http://gpmdb.org/data/keyword/28135259 1095]. | #Zolg DP, Wilhelm M, Schnatbaum K, Zerweck J, Knaute T, Delanghe B, Bailey DJ, Gessulat S, Ehrlich HC, Weininger M, Yu P, Schlegl J, Kramer K, Schmidt T, Kusebauch U, Deutsch EW, Aebersold R, Moritz RL, Wenschuh H, Moehring T, Aiche S, Huhmer A, Reimer U, Kuster B, (2017) "Building ProteomeTools based on a complete synthetic human proteome." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28135259 28135259]; doi: [https://dx.doi.org/10.1038/nmeth.4153 10.1038/nmeth.4153]; GPMDB: [http://gpmdb.org/data/keyword/28135259 1095]. | ||
+ | #Abe Y, Nagano M, Tada A, Adachi J, Tomonaga T, (2017) "Deep Phosphotyrosine Proteomics by Optimization of Phosphotyrosine Enrichment and MS/MS Parameters." <i>J Proteome Res</i> <b>16</b>(2):1077–1086; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28152594 28152594]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b00576 10.1021/acs.jproteome.6b00576]; GPMDB: [http://gpmdb.org/data/keyword/28152594 41]. | ||
#Jung SY, Choi JM, Rousseaux MW, Malovannaya A, Kim JJ, Kutzera J, Wang Y, Huang Y, Zhu W, Maity S, Zoghbi HY, Qin J, (2017) "An anatomically resolved mouse brain proteome reveals Parkinson disease-relevant pathways." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28153913 28153913]; doi: [https://dx.doi.org/10.1074/mcp.M116.061440 10.1074/mcp.M116.061440]; GPMDB: [http://gpmdb.org/data/keyword/28153913 610]. | #Jung SY, Choi JM, Rousseaux MW, Malovannaya A, Kim JJ, Kutzera J, Wang Y, Huang Y, Zhu W, Maity S, Zoghbi HY, Qin J, (2017) "An anatomically resolved mouse brain proteome reveals Parkinson disease-relevant pathways." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28153913 28153913]; doi: [https://dx.doi.org/10.1074/mcp.M116.061440 10.1074/mcp.M116.061440]; GPMDB: [http://gpmdb.org/data/keyword/28153913 610]. | ||
#Diering GH, Nirujogi RS, Roth RH, Worley PF, Pandey A, Huganir RL, (2017) "Homer1a drives homeostatic scaling-down of excitatory synapses during sleep." <i>Science</i> <b>355</b>(6324):511–515; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28154077 28154077]; doi: [https://dx.doi.org/10.1126/science.aai8355 10.1126/science.aai8355]; GPMDB: [http://gpmdb.org/data/keyword/28154077 25]. | #Diering GH, Nirujogi RS, Roth RH, Worley PF, Pandey A, Huganir RL, (2017) "Homer1a drives homeostatic scaling-down of excitatory synapses during sleep." <i>Science</i> <b>355</b>(6324):511–515; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28154077 28154077]; doi: [https://dx.doi.org/10.1126/science.aai8355 10.1126/science.aai8355]; GPMDB: [http://gpmdb.org/data/keyword/28154077 25]. | ||
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#Langley SR, Willeit K, Didangelos A, Matic LP, Skroblin P, Barallobre-Barreiro J, Lengquist M, Rungger G, Kapustin A, Kedenko L, Molenaar C, Lu R, Barwari T, Suna G, Yin X, Iglseder B, Paulweber B, Willeit P, Shalhoub J, Pasterkamp G, Davies AH, Monaco C, Hedin U, Shanahan CM, Willeit J, Kiechl S, Mayr M, (2017) "Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques." <i>J Clin Invest</i> <b>127</b>(4):1546–1560; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319050 28319050]; doi: [https://dx.doi.org/10.1172/JCI86924 10.1172/JCI86924]; GPMDB: [http://gpmdb.org/data/keyword/28319050 936]. | #Langley SR, Willeit K, Didangelos A, Matic LP, Skroblin P, Barallobre-Barreiro J, Lengquist M, Rungger G, Kapustin A, Kedenko L, Molenaar C, Lu R, Barwari T, Suna G, Yin X, Iglseder B, Paulweber B, Willeit P, Shalhoub J, Pasterkamp G, Davies AH, Monaco C, Hedin U, Shanahan CM, Willeit J, Kiechl S, Mayr M, (2017) "Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques." <i>J Clin Invest</i> <b>127</b>(4):1546–1560; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319050 28319050]; doi: [https://dx.doi.org/10.1172/JCI86924 10.1172/JCI86924]; GPMDB: [http://gpmdb.org/data/keyword/28319050 936]. | ||
#Kliza K, Taumer C, Pinzuti I, Franz-Wachtel M, Kunzelmann S, Stieglitz B, Macek B, Husnjak K, (2017) "Internally tagged ubiquitin: a tool to identify linear polyubiquitin-modified proteins by mass spectrometry." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319114 28319114]; doi: [https://dx.doi.org/10.1038/nmeth.4228 10.1038/nmeth.4228]; GPMDB: [http://gpmdb.org/data/keyword/28319114 32]. | #Kliza K, Taumer C, Pinzuti I, Franz-Wachtel M, Kunzelmann S, Stieglitz B, Macek B, Husnjak K, (2017) "Internally tagged ubiquitin: a tool to identify linear polyubiquitin-modified proteins by mass spectrometry." <i>Nat Methods</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28319114 28319114]; doi: [https://dx.doi.org/10.1038/nmeth.4228 10.1038/nmeth.4228]; GPMDB: [http://gpmdb.org/data/keyword/28319114 32]. | ||
+ | #Khodadoust MS, Olsson N, Wagar LE, Haabeth OA, Chen B, Swaminathan K, Rawson K, Liu CL, Steiner D, Lund P, Rao S, Zhang L, Marceau C, Stehr H, Newman AM, Czerwinski DK, Carlton VE, Moorhead M, Faham M, Kohrt HE, Carette J, Green MR, Davis MM, Levy R, Elias JE, Alizadeh AA, (2017) "Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens." <i>Nature</i> <b>543</b>(7647):723–727; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28329770 28329770]; doi: [https://dx.doi.org/10.1038/nature21433 10.1038/nature21433]; GPMDB: [http://gpmdb.org/data/keyword/28329770 147]. | ||
#Zhang X, Maity T, Kashyap MK, Bansal M, Venugopalan A, Singh S, Awasthi S, Marimuthu A, Jacob HK, Belkina N, Pitts S, Cultraro CM, Gao S, Kirkali F, Biswas R, Chaerkady R, Califano A, Pandey A, Guha U, (2017) "Quantitative tyrosine phosphoproteomics of EGFR tyrosine kinase inhibitor-treated lung adenocarcinoma cells reveals potential novel biomarkers of therapeutic response." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28331001 28331001]; doi: [https://dx.doi.org/10.1074/mcp.M117.067439 10.1074/mcp.M117.067439]; GPMDB: [http://gpmdb.org/data/keyword/28331001 41]. | #Zhang X, Maity T, Kashyap MK, Bansal M, Venugopalan A, Singh S, Awasthi S, Marimuthu A, Jacob HK, Belkina N, Pitts S, Cultraro CM, Gao S, Kirkali F, Biswas R, Chaerkady R, Califano A, Pandey A, Guha U, (2017) "Quantitative tyrosine phosphoproteomics of EGFR tyrosine kinase inhibitor-treated lung adenocarcinoma cells reveals potential novel biomarkers of therapeutic response." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28331001 28331001]; doi: [https://dx.doi.org/10.1074/mcp.M117.067439 10.1074/mcp.M117.067439]; GPMDB: [http://gpmdb.org/data/keyword/28331001 41]. | ||
#Nathan A, Reinhardt P, Kruspe D, Jörß T, Groth M, Nolte H, Habenicht A, Herrmann J, Holschbach V, Toth B, Krüger M, Wang ZQ, Platzer M, Englert C, (2017) "The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis." <i>Hum Mol Genet</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28334862 28334862]; doi: [https://dx.doi.org/10.1093/hmg/ddx075 10.1093/hmg/ddx075]; GPMDB: [http://gpmdb.org/data/keyword/28334862 48]. | #Nathan A, Reinhardt P, Kruspe D, Jörß T, Groth M, Nolte H, Habenicht A, Herrmann J, Holschbach V, Toth B, Krüger M, Wang ZQ, Platzer M, Englert C, (2017) "The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis." <i>Hum Mol Genet</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28334862 28334862]; doi: [https://dx.doi.org/10.1093/hmg/ddx075 10.1093/hmg/ddx075]; GPMDB: [http://gpmdb.org/data/keyword/28334862 48]. | ||
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#Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG, (2017) "Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention." <i>Cell Rep</i> <b>19</b>(8):1640–1653; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28538182 28538182]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.039 10.1016/j.celrep.2017.04.039]; GPMDB: [http://gpmdb.org/data/keyword/28538182 11]. | #Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG, (2017) "Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention." <i>Cell Rep</i> <b>19</b>(8):1640–1653; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28538182 28538182]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.04.039 10.1016/j.celrep.2017.04.039]; GPMDB: [http://gpmdb.org/data/keyword/28538182 11]. | ||
#Elmasri WA, Zhu R, Peng W, Al-Hariri M, Kobeissy F, Tran P, Hamood AN, Hegazy MF, Paré PW, Mechref Y, (2017) "Multitargeted Flavonoid Inhibition of the Pathogenic Bacterium Staphylococcus aureus: A Proteomic Characterization." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541047 28541047]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00137 10.1021/acs.jproteome.7b00137]; GPMDB: [http://gpmdb.org/data/keyword/28541047 12]. | #Elmasri WA, Zhu R, Peng W, Al-Hariri M, Kobeissy F, Tran P, Hamood AN, Hegazy MF, Paré PW, Mechref Y, (2017) "Multitargeted Flavonoid Inhibition of the Pathogenic Bacterium Staphylococcus aureus: A Proteomic Characterization." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28541047 28541047]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00137 10.1021/acs.jproteome.7b00137]; GPMDB: [http://gpmdb.org/data/keyword/28541047 12]. | ||
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#Kume K, Cantwell H, Neumann FR, Jones AW, Snijders AP, Nurse P, (2017) "A systematic genomic screen implicates nucleocytoplasmic transport and membrane growth in nuclear size control." <i>PLoS Genet</i> <b>13</b>(5):e1006767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28545058 28545058]; doi: [https://dx.doi.org/10.1371/journal.pgen.1006767 10.1371/journal.pgen.1006767]; GPMDB: [http://gpmdb.org/data/keyword/28545058 192]. | #Kume K, Cantwell H, Neumann FR, Jones AW, Snijders AP, Nurse P, (2017) "A systematic genomic screen implicates nucleocytoplasmic transport and membrane growth in nuclear size control." <i>PLoS Genet</i> <b>13</b>(5):e1006767; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28545058 28545058]; doi: [https://dx.doi.org/10.1371/journal.pgen.1006767 10.1371/journal.pgen.1006767]; GPMDB: [http://gpmdb.org/data/keyword/28545058 192]. | ||
#Meier SM, Kreutz D, Winter L, Klose MHM, Cseh K, Weiss T, Bileck A, Alte B, Mader JC, Jana S, Chatterjee A, Bhattacharyya A, Hejl M, Jakupec MA, Heffeter P, Berger W, Hartinger CG, Keppler BK, Wiche G, Gerner C, (2017) "An Organoruthenium Anticancer Agent Shows Unexpected Target Selectivity For Plectin." <i>Angew Chem Int Ed Engl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28547791 28547791]; doi: [https://dx.doi.org/10.1002/anie.201702242 10.1002/anie.201702242]; GPMDB: [http://gpmdb.org/data/keyword/28547791 4]. | #Meier SM, Kreutz D, Winter L, Klose MHM, Cseh K, Weiss T, Bileck A, Alte B, Mader JC, Jana S, Chatterjee A, Bhattacharyya A, Hejl M, Jakupec MA, Heffeter P, Berger W, Hartinger CG, Keppler BK, Wiche G, Gerner C, (2017) "An Organoruthenium Anticancer Agent Shows Unexpected Target Selectivity For Plectin." <i>Angew Chem Int Ed Engl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28547791 28547791]; doi: [https://dx.doi.org/10.1002/anie.201702242 10.1002/anie.201702242]; GPMDB: [http://gpmdb.org/data/keyword/28547791 4]. | ||
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#Sun C, De Mello V, Mohamed A, Ortuste Quiroga HP, Garcia-Munoz A, Al Bloshi A, Tremblay AM, von Kriegsheim A, Collie-Duguid E, Vargesson N, Matallanas D, Wackerhage H, Zammit PS, (2017) "Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function." <i>Stem Cells</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28589555 28589555]; doi: [https://dx.doi.org/10.1002/stem.2652 10.1002/stem.2652]; GPMDB: [http://gpmdb.org/data/keyword/28589555 36]. | #Sun C, De Mello V, Mohamed A, Ortuste Quiroga HP, Garcia-Munoz A, Al Bloshi A, Tremblay AM, von Kriegsheim A, Collie-Duguid E, Vargesson N, Matallanas D, Wackerhage H, Zammit PS, (2017) "Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function." <i>Stem Cells</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28589555 28589555]; doi: [https://dx.doi.org/10.1002/stem.2652 10.1002/stem.2652]; GPMDB: [http://gpmdb.org/data/keyword/28589555 36]. | ||
#Zhang J, Lu S, Zhou Y, Meng K, Chen Z, Cui Y, Shi Y, Wang T, He QY, (2017) "Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes." <i>Proteomics</i> <b>17</b>(13-14):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28590090 28590090]; doi: [https://dx.doi.org/10.1002/pmic.201700103 10.1002/pmic.201700103]; GPMDB: [http://gpmdb.org/data/keyword/28590090 6]. | #Zhang J, Lu S, Zhou Y, Meng K, Chen Z, Cui Y, Shi Y, Wang T, He QY, (2017) "Motile hepatocellular carcinoma cells preferentially secret sugar metabolism regulatory proteins via exosomes." <i>Proteomics</i> <b>17</b>(13-14):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28590090 28590090]; doi: [https://dx.doi.org/10.1002/pmic.201700103 10.1002/pmic.201700103]; GPMDB: [http://gpmdb.org/data/keyword/28590090 6]. | ||
+ | #Jensen SR, Schoof EM, Wheeler SE, Hvid H, Ahnfelt-Rønne J, Hansen BF, Nishimura E, Olsen GS, Kislinger T, Brubaker PL, (2017) "Quantitative Proteomics of Intestinal Mucosa From Male Mice Lacking Intestinal Epithelial Insulin Receptors." <i>Endocrinology</i> <b>158</b>(8):2470–2485; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28591806 28591806]; doi: [https://dx.doi.org/10.1210/en.2017-00194 10.1210/en.2017-00194]; GPMDB: [http://gpmdb.org/data/keyword/28591806 10]. | ||
#Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV, (2017) "An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes." <i>Cell Syst</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28601559 28601559]; doi: [https://dx.doi.org/10.1016/j.cels.2017.05.009 10.1016/j.cels.2017.05.009]; GPMDB: [http://gpmdb.org/data/keyword/28601559 93]. | #Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV, (2017) "An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes." <i>Cell Syst</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28601559 28601559]; doi: [https://dx.doi.org/10.1016/j.cels.2017.05.009 10.1016/j.cels.2017.05.009]; GPMDB: [http://gpmdb.org/data/keyword/28601559 93]. | ||
#Lapek JD Jr, Lewinski MK, Wozniak JM, Guatelli J, Gonzalez DJ, (2017) "Quantitative Temporal Viromics of an Inducible HIV-1 Model Yields Insight to Global Host Targets and Phospho-Dynamics Associated with Vpr." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28606917 28606917]; doi: [https://dx.doi.org/10.1074/mcp.M116.066019 10.1074/mcp.M116.066019]; GPMDB: [http://gpmdb.org/data/keyword/28606917 4]. | #Lapek JD Jr, Lewinski MK, Wozniak JM, Guatelli J, Gonzalez DJ, (2017) "Quantitative Temporal Viromics of an Inducible HIV-1 Model Yields Insight to Global Host Targets and Phospho-Dynamics Associated with Vpr." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28606917 28606917]; doi: [https://dx.doi.org/10.1074/mcp.M116.066019 10.1074/mcp.M116.066019]; GPMDB: [http://gpmdb.org/data/keyword/28606917 4]. | ||
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#Plenker D, Riedel M, Brägelmann J, Dammert MA, Chauhan R, Knowles PP, Lorenz C, Keul M, Bührmann M, Pagel O, Tischler V, Scheel AH, Schütte D, Song Y, Stark J, Mrugalla F, Alber Y, Richters A, Engel J, Leenders F, Heuckmann JM, Wolf J, Diebold J, Pall G, Peifer M, Aerts M, Gevaert K, Zahedi RP, Buettner R, Shokat KM, McDonald NQ, Kast SM, Gautschi O, Thomas RK, Sos ML, (2017) "Drugging the catalytically inactive state of RET kinase in RET-rearranged tumors." <i>Sci Transl Med</i> <b>9</b>(394):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28615362 28615362]; doi: [https://dx.doi.org/10.1126/scitranslmed.aah6144 10.1126/scitranslmed.aah6144]; GPMDB: [http://gpmdb.org/data/keyword/28615362 17]. | #Plenker D, Riedel M, Brägelmann J, Dammert MA, Chauhan R, Knowles PP, Lorenz C, Keul M, Bührmann M, Pagel O, Tischler V, Scheel AH, Schütte D, Song Y, Stark J, Mrugalla F, Alber Y, Richters A, Engel J, Leenders F, Heuckmann JM, Wolf J, Diebold J, Pall G, Peifer M, Aerts M, Gevaert K, Zahedi RP, Buettner R, Shokat KM, McDonald NQ, Kast SM, Gautschi O, Thomas RK, Sos ML, (2017) "Drugging the catalytically inactive state of RET kinase in RET-rearranged tumors." <i>Sci Transl Med</i> <b>9</b>(394):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28615362 28615362]; doi: [https://dx.doi.org/10.1126/scitranslmed.aah6144 10.1126/scitranslmed.aah6144]; GPMDB: [http://gpmdb.org/data/keyword/28615362 17]. | ||
#Marx H, Hahne H, Ulbrich SE, Schnieke A, Rottmann O, Frishman D, Kuster B, (2017) "Annotation of the Domestic Pig Genome by Quantitative Proteogenomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625053 28625053]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00184 10.1021/acs.jproteome.7b00184]; GPMDB: [http://gpmdb.org/data/keyword/28625053 181]. | #Marx H, Hahne H, Ulbrich SE, Schnieke A, Rottmann O, Frishman D, Kuster B, (2017) "Annotation of the Domestic Pig Genome by Quantitative Proteogenomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625053 28625053]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00184 10.1021/acs.jproteome.7b00184]; GPMDB: [http://gpmdb.org/data/keyword/28625053 181]. | ||
+ | #Wang J, Mouradov D, Wang X, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, Shi Z, Ban Y, Chen X, Coffey RJC, Slebos RJC, Burgess AW, Liebler DC, Zhang B, Sieber OM, (2017) "Colorectal Cancer Cell Line Proteomes are Representative of Primary Tumors and Predict Drug Sensitivity." <i>Gastroenterology</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28625833 28625833]; doi: [https://dx.doi.org/10.1053/j.gastro.2017.06.008 10.1053/j.gastro.2017.06.008]; GPMDB: [http://gpmdb.org/data/keyword/28625833 44]. | ||
#Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T, (2017) "Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28626882 28626882]; doi: [https://dx.doi.org/10.1002/prca.201700014 10.1002/prca.201700014]; GPMDB: [http://gpmdb.org/data/keyword/28626882 56]. | #Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T, (2017) "Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28626882 28626882]; doi: [https://dx.doi.org/10.1002/prca.201700014 10.1002/prca.201700014]; GPMDB: [http://gpmdb.org/data/keyword/28626882 56]. | ||
#Qin G, Dang M, Gao H, Wang H, Luo F, Chen R, (2017) "Deciphering the protein-protein interaction network regulating hepatocellular carcinoma metastasis." <i>Biochim Biophys Acta</i> <b>1865</b>(9):1114–1122; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627476 28627476]; doi: [https://dx.doi.org/10.1016/j.bbapap.2017.06.005 10.1016/j.bbapap.2017.06.005]; GPMDB: [http://gpmdb.org/data/keyword/28627476 6]. | #Qin G, Dang M, Gao H, Wang H, Luo F, Chen R, (2017) "Deciphering the protein-protein interaction network regulating hepatocellular carcinoma metastasis." <i>Biochim Biophys Acta</i> <b>1865</b>(9):1114–1122; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627476 28627476]; doi: [https://dx.doi.org/10.1016/j.bbapap.2017.06.005 10.1016/j.bbapap.2017.06.005]; GPMDB: [http://gpmdb.org/data/keyword/28627476 6]. | ||
+ | #Sung E, Kwon OK, Lee JM, Lee S, (2017) "Proteomics approach to identify novel metastatic bone markers from the secretome of PC-3 prostate cancer cells." <i>Electrophoresis</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28627741 28627741]; doi: [https://dx.doi.org/10.1002/elps.201700052 10.1002/elps.201700052]; GPMDB: [http://gpmdb.org/data/keyword/28627741 2]. | ||
#Loke I, Østergaard O, Heegaard NHH, Packer NH, Thaysen-Andersen M, (2017) "Paucimannose-Rich <i>N</i>-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28630087 28630087]; doi: [https://dx.doi.org/10.1074/mcp.M116.066746 10.1074/mcp.M116.066746]; GPMDB: [http://gpmdb.org/data/keyword/28630087 118]. | #Loke I, Østergaard O, Heegaard NHH, Packer NH, Thaysen-Andersen M, (2017) "Paucimannose-Rich <i>N</i>-glycosylation of Spatiotemporally Regulated Human Neutrophil Elastase Modulates Its Immune Functions." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28630087 28630087]; doi: [https://dx.doi.org/10.1074/mcp.M116.066746 10.1074/mcp.M116.066746]; GPMDB: [http://gpmdb.org/data/keyword/28630087 118]. | ||
#Feil G, Horres R, Schulte J, Mack AF, Petzoldt S, Arnold C, Meng C, Jost L, Boxleitner J, Kiessling-Wolf N, Serbest E, Helm D, Kuster B, Hartmann I, Korff T, Hahne H, (2017) "Bacterial cellulose shifts transcriptome and proteome of cultured endothelial cells towards native differentiation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28637836 28637836]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000001 10.1074/mcp.RA117.000001]; GPMDB: [http://gpmdb.org/data/keyword/28637836 2]. | #Feil G, Horres R, Schulte J, Mack AF, Petzoldt S, Arnold C, Meng C, Jost L, Boxleitner J, Kiessling-Wolf N, Serbest E, Helm D, Kuster B, Hartmann I, Korff T, Hahne H, (2017) "Bacterial cellulose shifts transcriptome and proteome of cultured endothelial cells towards native differentiation." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28637836 28637836]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000001 10.1074/mcp.RA117.000001]; GPMDB: [http://gpmdb.org/data/keyword/28637836 2]. | ||
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#Poppleton DI, Duchateau M, Hourdel V, Matondo M, Flechsler J, Klingl A, Beloin C, Gribaldo S, (2017) "Outer Membrane Proteome of <i>Veillonella parvula:</i> A Diderm Firmicute of the Human Microbiome." <i>Front Microbiol</i> <b>8</b>:1215; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28713344 28713344]; doi: [https://dx.doi.org/10.3389/fmicb.2017.01215 10.3389/fmicb.2017.01215]; GPMDB: [http://gpmdb.org/data/keyword/28713344 16]. | #Poppleton DI, Duchateau M, Hourdel V, Matondo M, Flechsler J, Klingl A, Beloin C, Gribaldo S, (2017) "Outer Membrane Proteome of <i>Veillonella parvula:</i> A Diderm Firmicute of the Human Microbiome." <i>Front Microbiol</i> <b>8</b>:1215; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28713344 28713344]; doi: [https://dx.doi.org/10.3389/fmicb.2017.01215 10.3389/fmicb.2017.01215]; GPMDB: [http://gpmdb.org/data/keyword/28713344 16]. | ||
#Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW, (2017) "Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation." <i>Cell Rep</i> <b>20</b>(3):721–736; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28723573 28723573]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.074 10.1016/j.celrep.2017.06.074]; GPMDB: [http://gpmdb.org/data/keyword/28723573 2]. | #Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW, (2017) "Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation." <i>Cell Rep</i> <b>20</b>(3):721–736; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28723573 28723573]; doi: [https://dx.doi.org/10.1016/j.celrep.2017.06.074 10.1016/j.celrep.2017.06.074]; GPMDB: [http://gpmdb.org/data/keyword/28723573 2]. | ||
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+ | #Mir SA, Renuse S, Sathe G, Khan AA, Patil AH, Nanjappa V, Bhat FA, Prasad TSK, Giri AK, Chatterjee A, Gowda H, (2017) "Altered signaling associated with chronic arsenic exposure in human skin keratinocytes." <i>Proteomics Clin Appl</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28731282 28731282]; doi: [https://dx.doi.org/10.1002/prca.201700004 10.1002/prca.201700004]; GPMDB: [http://gpmdb.org/data/keyword/28731282 2]. | ||
+ | #Maffioli E, Nonnis S, Angioni R, Santagata F, Calì B, Zanotti L, Negri A, Viola A, Tedeschi G, (2017) "Proteomic analysis of the secretome of human bone marrow-derived mesenchymal stem cells primed by pro-inflammatory cytokines." <i>J Proteomics</i> <b>166</b>:115–126; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739509 28739509]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.07.012 10.1016/j.jprot.2017.07.012]; GPMDB: [http://gpmdb.org/data/keyword/28739509 20]. | ||
#Hau AC, Grebbin BM, Agoston Z, Anders-Maurer M, Müller T, Groß A, Kolb J, Langer JD, Döring C, Schulte D, (2017) "MEIS homeodomain proteins facilitate PARP1/ARTD1-mediated eviction of histone H1." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739678 28739678]; doi: [https://dx.doi.org/10.1083/jcb.201701154 10.1083/jcb.201701154]; GPMDB: [http://gpmdb.org/data/keyword/28739678 6]. | #Hau AC, Grebbin BM, Agoston Z, Anders-Maurer M, Müller T, Groß A, Kolb J, Langer JD, Döring C, Schulte D, (2017) "MEIS homeodomain proteins facilitate PARP1/ARTD1-mediated eviction of histone H1." <i>J Cell Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28739678 28739678]; doi: [https://dx.doi.org/10.1083/jcb.201701154 10.1083/jcb.201701154]; GPMDB: [http://gpmdb.org/data/keyword/28739678 6]. | ||
#D'Angelo G, Chaerkady R, Yu W, Hizal DB, Hess S, Zhao W, Lekstrom K, Guo X, White WI, Roskos L, Bowen MA, Yang H, (2017) "Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28745510 28745510]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01050 10.1021/acs.jproteome.6b01050]; GPMDB: [http://gpmdb.org/data/keyword/28745510 5]. | #D'Angelo G, Chaerkady R, Yu W, Hizal DB, Hess S, Zhao W, Lekstrom K, Guo X, White WI, Roskos L, Bowen MA, Yang H, (2017) "Statistical models for the analysis of isobaric tags multiplexed quantitative proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28745510 28745510]; doi: [https://dx.doi.org/10.1021/acs.jproteome.6b01050 10.1021/acs.jproteome.6b01050]; GPMDB: [http://gpmdb.org/data/keyword/28745510 5]. | ||
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#Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D, (2017) "Deep Metaproteomics Approach for the Study of Human Microbiomes." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28749657 28749657]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b02224 10.1021/acs.analchem.7b02224]; GPMDB: [http://gpmdb.org/data/keyword/28749657 43]. | #Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D, (2017) "Deep Metaproteomics Approach for the Study of Human Microbiomes." <i>Anal Chem</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28749657 28749657]; doi: [https://dx.doi.org/10.1021/acs.analchem.7b02224 10.1021/acs.analchem.7b02224]; GPMDB: [http://gpmdb.org/data/keyword/28749657 43]. | ||
#Haderk F, Schulz R, Iskar M, Cid LL, Worst T, Willmund KV, Schulz A, Warnken U, Seiler J, Benner A, Nessling M, Zenz T, Göbel M, Dürig J, Diederichs S, Paggetti J, Moussay E, Stilgenbauer S, Zapatka M, Lichter P, Seiffert M, (2017) "Tumor-derived exosomes modulate PD-L1 expression in monocytes." <i>Sci Immunol</i> <b>2</b>(13):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28754746 28754746]; doi: [https://dx.doi.org/10.1126/sciimmunol.aah5509 10.1126/sciimmunol.aah5509]; GPMDB: [http://gpmdb.org/data/keyword/28754746 32]. | #Haderk F, Schulz R, Iskar M, Cid LL, Worst T, Willmund KV, Schulz A, Warnken U, Seiler J, Benner A, Nessling M, Zenz T, Göbel M, Dürig J, Diederichs S, Paggetti J, Moussay E, Stilgenbauer S, Zapatka M, Lichter P, Seiffert M, (2017) "Tumor-derived exosomes modulate PD-L1 expression in monocytes." <i>Sci Immunol</i> <b>2</b>(13):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28754746 28754746]; doi: [https://dx.doi.org/10.1126/sciimmunol.aah5509 10.1126/sciimmunol.aah5509]; GPMDB: [http://gpmdb.org/data/keyword/28754746 32]. | ||
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#Gómez-Baena G, Bennett RJ, Martínez-Rodríguez C, Wnęk M, Laing G, Hickey G, McLean L, Beynon RJ, Carrol ED, (2017) "Quantitative Proteomics of Cerebrospinal Fluid in Paediatric Pneumococcal Meningitis." <i>Sci Rep</i> <b>7</b>(1):7042; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28765563 28765563]; doi: [https://dx.doi.org/10.1038/s41598-017-07127-6 10.1038/s41598-017-07127-6]; GPMDB: [http://gpmdb.org/data/keyword/28765563 28]. | #Gómez-Baena G, Bennett RJ, Martínez-Rodríguez C, Wnęk M, Laing G, Hickey G, McLean L, Beynon RJ, Carrol ED, (2017) "Quantitative Proteomics of Cerebrospinal Fluid in Paediatric Pneumococcal Meningitis." <i>Sci Rep</i> <b>7</b>(1):7042; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28765563 28765563]; doi: [https://dx.doi.org/10.1038/s41598-017-07127-6 10.1038/s41598-017-07127-6]; GPMDB: [http://gpmdb.org/data/keyword/28765563 28]. | ||
+ | #Fabiani FD, Renault TT, Peters B, Dietsche T, Gálvez EJC, Guse A, Freier K, Charpentier E, Strowig T, Franz-Wachtel M, Macek B, Wagner S, Hensel M, Erhardt M, (2017) "A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum." <i>PLoS Biol</i> <b>15</b>(8):e2002267; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28771474 28771474]; doi: [https://dx.doi.org/10.1371/journal.pbio.2002267 10.1371/journal.pbio.2002267]; GPMDB: [http://gpmdb.org/data/keyword/28771474 26]. | ||
+ | #Nguyen AT, Prado MA, Schmidt PJ, Sendamarai AK, Wilson-Grady JT, Min M, Campagna DR, Tian G, Shi Y, Dederer V, Kawan M, Kuehnle N, Paulo JA, Yao Y, Weiss MJ, Justice MJ, Gygi SP, Fleming MD, Finley D, (2017) "UBE2O remodels the proteome during terminal erythroid differentiation." <i>Science</i> <b>357</b>(6350):; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28774900 28774900]; doi: [https://dx.doi.org/10.1126/science.aan0218 10.1126/science.aan0218]; GPMDB: [http://gpmdb.org/data/keyword/28774900 13]. | ||
#Khan MH, Salomaa SI, Jacquemet G, Butt U, Miihkinen M, Deguchi T, Kremneva E, Lappalainen P, Humphries MJ, Pouwels J, (2017) "The Sharpin interactome reveals a role for Sharpin in lamellipodium formation via the Arp2/3 complex." <i>J Cell Sci</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28775156 28775156]; doi: [https://dx.doi.org/10.1242/jcs.200329 10.1242/jcs.200329]; GPMDB: [http://gpmdb.org/data/keyword/28775156 51]. | #Khan MH, Salomaa SI, Jacquemet G, Butt U, Miihkinen M, Deguchi T, Kremneva E, Lappalainen P, Humphries MJ, Pouwels J, (2017) "The Sharpin interactome reveals a role for Sharpin in lamellipodium formation via the Arp2/3 complex." <i>J Cell Sci</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28775156 28775156]; doi: [https://dx.doi.org/10.1242/jcs.200329 10.1242/jcs.200329]; GPMDB: [http://gpmdb.org/data/keyword/28775156 51]. | ||
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+ | #Kuboniwa M, Houser JR, Hendrickson EL, Wang Q, Alghamdi SA, Sakanaka A, Miller DP, Hutcherson JA, Wang T, Beck DAC, Whiteley M, Amano A, Wang H, Marcotte EM, Hackett M, Lamont RJ, (2017) "Metabolic crosstalk regulates Porphyromonas gingivalis colonization and virulence during oral polymicrobial infection." <i>Nat Microbiol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28924191 28924191]; doi: [https://dx.doi.org/10.1038/s41564-017-0021-6 10.1038/s41564-017-0021-6]; GPMDB: [http://gpmdb.org/data/keyword/28924191 15]. | ||
+ | #Lum KM, Sato Y, Beyer BA, Plaisted WC, Anglin JL, Lairson LL, Cravatt BF, (2017) "Mapping Protein Targets of Bioactive Small Molecules Using Lipid-Based Chemical Proteomics." <i>ACS Chem Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28930429 28930429]; doi: [https://dx.doi.org/10.1021/acschembio.7b00581 10.1021/acschembio.7b00581]; GPMDB: [http://gpmdb.org/data/keyword/28930429 43]. | ||
+ | #Whiteley AM, Prado MA, Peng I, Abbas AR, Haley B, Paulo JA, Reichelt M, Katakam A, Sagolla M, Modrusan Z, Lee DY, Roose-Girma M, Kirkpatrick DS, McKenzie BS, Gygi SP, Finley D, Brown EJ, (2017) "Ubiquilin1 promotes antigen-receptor mediated proliferation by eliminating mislocalized mitochondrial proteins." <i>Elife</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28933694 28933694]; doi: [https://dx.doi.org/10.7554/eLife.26435 10.7554/eLife.26435]; GPMDB: [http://gpmdb.org/data/keyword/28933694 4]. | ||
+ | #Velásquez E, Nogueira FCS, Velásquez I, Schmitt A, Falkai P, Domont GB, Martins de Souza D, (2017) "Synaptosomal proteome of the orbitofrontal cortex from schizophrenia patients using quantitative label-free and iTRAQ-based shotgun proteomics." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28949146 28949146]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00422 10.1021/acs.jproteome.7b00422]; GPMDB: [http://gpmdb.org/data/keyword/28949146 3]. | ||
+ | #Cuijpers SAG, Willemstein E, Vertegaal ACO, (2017) "<b>Converging SUMO and ubiquitin signaling: improved methodology identifies co-modified target proteins</b>." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28951443 28951443]; doi: [https://dx.doi.org/10.1074/mcp.TIR117.000152 10.1074/mcp.TIR117.000152]; GPMDB: [http://gpmdb.org/data/keyword/28951443 102]. | ||
+ | #Seddigh P, Bracht T, Molinier-Frenkel V, Castellano F, Kniemeyer O, Schuster M, Weski J, Hasenberg A, Kraus A, Poschet G, Hager T, Theegarte D, Opitz C, Brakhage AA, Sitek B, Hasenberg M, Gunzer M, (2017) "Quantitative Analysis of Proteome Modulations in Alveolar Epithelial Type II Cells in Response to Pulmonary <i>Aspergillus fumigatus</i> Infection." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28951444 28951444]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000072 10.1074/mcp.RA117.000072]; GPMDB: [http://gpmdb.org/data/keyword/28951444 18]. | ||
+ | #Wang Q, Lu Q, (2017) "Plasma membrane-derived extracellular microvesicles mediate non-canonical intercellular NOTCH signaling." <i>Nat Commun</i> <b>8</b>(1):709; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28955033 28955033]; doi: [https://dx.doi.org/10.1038/s41467-017-00767-2 10.1038/s41467-017-00767-2]; GPMDB: [http://gpmdb.org/data/keyword/28955033 2]. | ||
+ | #Triana S, de Cock H, Ohm RA, Danies G, Wösten HAB, Restrepo S, González Barrios AF, Celis A, (2017) "Lipid Metabolic Versatility in <i>Malassezia</i> spp. Yeasts Studied through Metabolic Modeling." <i>Front Microbiol</i> <b>8</b>:1772; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28959251 28959251]; doi: [https://dx.doi.org/10.3389/fmicb.2017.01772 10.3389/fmicb.2017.01772]; GPMDB: [http://gpmdb.org/data/keyword/28959251 37]. | ||
+ | #Wang Y, Chen Y, Zhang Y, Wei W, Li Y, Zhang T, He F, Gao Y, Xu P, (2017) "Multi-Protease Strategy Identifies Three PE2 Missing Proteins in Human Testis Tissue." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28959888 28959888]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00340 10.1021/acs.jproteome.7b00340]; GPMDB: [http://gpmdb.org/data/keyword/28959888 63]. | ||
+ | #Stadlmann J, Taubenschmid J, Wenzel D, Gattinger A, Dürnberger G, Dusberger F, Elling U, Mach L, Mechtler K, Penninger JM, (2017) "Comparative glycoproteomics of stem cells identifies new players in ricin toxicity." <i>Nature</i> <b>549</b>(7673):538–542; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28959962 28959962]; doi: [https://dx.doi.org/10.1038/nature24015 10.1038/nature24015]; GPMDB: [http://gpmdb.org/data/keyword/28959962 1]. | ||
+ | #Li S, He Y, Lin Z, Xu S, Zhou R, Liang F, Wang J, Yang H, Liu S, Ren Y, (2017) "Digging more missing proteins using an enrichment approach with ProteoMiner™." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28960076 28960076]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00353 10.1021/acs.jproteome.7b00353]; GPMDB: [http://gpmdb.org/data/keyword/28960076 199]. | ||
+ | #Hauser DN, Mamais A, Conti MM, Primiani CT, Kumaran R, Dillman AA, Langston RG, Beilina A, Garcia JH, Diaz-Ruiz A, Bernier M, Fiesel FC, Hou X, Springer W, Li Y, de Cabo R, Cookson MR, (2017) "Hexokinases link DJ-1 to the PINK1/parkin pathway." <i>Mol Neurodegener</i> <b>12</b>(1):70; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28962651 28962651]; doi: [https://dx.doi.org/10.1186/s13024-017-0212-x 10.1186/s13024-017-0212-x]; GPMDB: [http://gpmdb.org/data/keyword/28962651 6]. | ||
+ | #Zhang W, Chen X, Yan Z, Chen Y, Cui Y, Chen B, Huang C, Zhang W, Yin X, He QY, He F, Wang T, (2017) "Detergent-insoluble proteome analysis revealed aberrantly aggregated proteins in human preeclampsia placentas." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28965414 28965414]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00352 10.1021/acs.jproteome.7b00352]; GPMDB: [http://gpmdb.org/data/keyword/28965414 4]. | ||
+ | #Reyes ED, Kulej K, Pancholi NJ, Akhtar LN, Avgousti DC, Kim ET, Bricker DK, Spruce LA, Koniski SA, Seeholzer SH, Isaacs SN, Garcia BA, Weitzman MD, (2017) "Identifying host factors associated with DNA replicated during virus infection." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28972080 28972080]; doi: [https://dx.doi.org/10.1074/mcp.M117.067116 10.1074/mcp.M117.067116]; GPMDB: [http://gpmdb.org/data/keyword/28972080 164]. | ||
+ | #Kollipara L, Buchkremer S, Coraspe JAG, Hathazi D, Senderek J, Weis J, Zahedi RP, Roos A, (2017) "In-depth phenotyping of lymphoblastoid cells suggests selective cellular vulnerability in Marinesco-Sjögren syndrome." <i>Oncotarget</i> <b>8</b>(40):68493–68516; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28978133 28978133]; doi: [https://dx.doi.org/10.18632/oncotarget.19663 10.18632/oncotarget.19663]; GPMDB: [http://gpmdb.org/data/keyword/28978133 23]. | ||
+ | #Opitz N, Schmitt K, Hofer-Pretz V, Neumann B, Krebber H, Braus GH, Valerius O, (2017) "Capturing the Asc1p/RACK1 microenvironment at the head region of the 40S ribosome with quantitative BioID in yeast." <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/28982715 28982715]; doi: [https://dx.doi.org/10.1074/mcp.M116.066654 10.1074/mcp.M116.066654]; GPMDB: [http://gpmdb.org/data/keyword/28982715 268]. | ||
+ | #Saravanan R, Adav SS, Choong YK, van der Plas MJA, Petrlova J, Kjellström S, Sze SK, Schmidtchen A, (2017) "Proteolytic signatures define unique thrombin-derived peptides present in human wound fluid in vivo." <i>Sci Rep</i> <b>7</b>(1):13136; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29030565 29030565]; doi: [https://dx.doi.org/10.1038/s41598-017-13197-3 10.1038/s41598-017-13197-3]; GPMDB: [http://gpmdb.org/data/keyword/29030565 43]. | ||
+ | #Grenga L, Chandra G, Saalbach G, Galmozzi CV, Kramer G, Malone JG, (2017) "Analyzing the Complex Regulatory Landscape of Hfq - an Integrative, Multi-Omics Approach." <i>Front Microbiol</i> <b>8</b>:1784; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29033902 29033902]; doi: [https://dx.doi.org/10.3389/fmicb.2017.01784 10.3389/fmicb.2017.01784]; GPMDB: [http://gpmdb.org/data/keyword/29033902 1]. | ||
+ | #Kugeratski FG, Batista M, Lima CVP, Neilson LJ, da Cunha ES, de Godoy LMF, Zanivan S, Krieger MA, Marchini FK, (2017) "The mitogen-activated protein kinase kinase 5 regulates the proliferation and biosynthetic processes in procyclic forms of Trypanosoma brucei." <i>J Proteome Res</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29043805 29043805]; doi: [https://dx.doi.org/10.1021/acs.jproteome.7b00415 10.1021/acs.jproteome.7b00415]; GPMDB: [http://gpmdb.org/data/keyword/29043805 15]. | ||
+ | #Fabrik I, Link M, Putzova D, Plzakova L, Lubovska Z, Philimonenko V, Pavkova I, Rehulka P, Krocova Z, Hozak P, Santic M, Stulik J, (2017) "<b>The early dendritic cell signaling induced by virulent <i>Francisella</i><i>tularensis</i> strain occurs in phases and involves the activation of ERKs and p38 in the later stage.</b>" <i>Mol Cell Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29046388 29046388]; doi: [https://dx.doi.org/10.1074/mcp.RA117.000160 10.1074/mcp.RA117.000160]; GPMDB: [http://gpmdb.org/data/keyword/29046388 358]. | ||
+ | #Raschdorf O, Bonn F, Zeytuni N, Zarivach R, Becher D, Schüler D, (2017) "A quantitative assessment of the membrane-integral sub-proteome of a bacterial magnetic organelle." <i>J Proteomics</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29054541 29054541]; doi: [https://dx.doi.org/10.1016/j.jprot.2017.10.007 10.1016/j.jprot.2017.10.007]; GPMDB: [http://gpmdb.org/data/keyword/29054541 127]. | ||
+ | #Karg E, Smets M, Ryan J, Forné I, Qin W, Mulholland CB, Kalideris G, Imhof A, Bultmann S, Leonhardt H, (2017) "Ubiquitome analysis reveals PCNA-associated factor 15 (PAF15) as a specific ubiquitination target of UHRF1 in embryonic stem cells." <i>J Mol Biol</i>; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29055779 29055779]; doi: [https://dx.doi.org/10.1016/j.jmb.2017.10.014 10.1016/j.jmb.2017.10.014]; GPMDB: [http://gpmdb.org/data/keyword/29055779 32]. | ||
+ | #Hartl M, Füßl M, Boersema PJ, Jost JO, Kramer K, Bakirbas A, Sindlinger J, Plöchinger M, Leister D, Uhrig G, Moorhead GB, Cox J, Salvucci ME, Schwarzer D, Mann M, Finkemeier I, (2017) "Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in <i>Arabidopsis</i>." <i>Mol Syst Biol</i> <b>13</b>(10):949; PMID: [http://www.ncbi.nlm.nih.gov/pubmed/29061669 29061669]; GPMDB: [http://gpmdb.org/data/keyword/29061669 44]. |
GPMDB was originally constructed to serve as a reference work for all publicly available proteomics generated using tandem mass spectrometry. Public data is downloaded and reanalyzed using the current version of X! Tandem. The result files generated by the reanalysis and the relevant metadata are imported into the database and made available through the associated web site, ftp site and REST interfaces.
Contents |
The following public data repositories are checked daily for new suitable raw data for reanalysis:
Data made available from specific large projects, such as CPTAC or the Human Proteome Atlas, are also included when they are made available. Every effort is made so that reanalyzed results from all data sources are made available within 48 hours of their being released. In addition, data from lab web sites, ftp sites and direct contributions through the GPM sites made available to researchers are imported into GPMDB as part of a daily incremental update process.
GPMDB has been in operation since Jan. 1, 2004. Several large data source repositories have come into existence and ceased activity in the period since that time. All of the data from those repositories (e.g., TRANCHE, Peptidome) were reanalyzed and stored in GPMDB and they are still available even though the source repository sites are no longer active.
Simply because data is made available does not mean that it will be included in GPMDB. The data must be approved our quality control AI for its initial acceptance and it may be rejected subsequently because of either quality or originality concerns.
The following is a list of data sets with associated PubMed IDs that have supplied data to the GPMDB Project through the data sources mentioned above. The list was current, as of Nov. 5, 2017.